Response of estuarine biofilm microbial community development to changes in dissolved oxygen and nutrient concentrations

Microbial Ecology

Volumn 54, Issue 3, 2007, Pages 532-542

  Nocker, Andreas ^a   Lepo, Joe Eugene ^a   Martin, Linda Lin ^a   Snyder, Richard Allan ^a  

^a UNIVERSITY OF WEST FLORIDA   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

OXYGEN; RNA 16S;

ARTICLE; BACTERIUM; BIOFILM; BIOMASS; ECOSYSTEM; GENETICS; GROWTH, DEVELOPMENT AND AGING; METABOLISM; MICROBIOLOGY; PHYLOGENY; RESTRICTION FRAGMENT LENGTH POLYMORPHISM; SEASON; UNITED STATES;

BACTERIA; BIOFILMS; BIOMASS; ECOSYSTEM; FLORIDA; OXYGEN; PHYLOGENY; POLYMORPHISM, RESTRICTION FRAGMENT LENGTH; RNA, RIBOSOMAL, 16S; SEASONS; WATER MICROBIOLOGY;

PROKARYOTA;

EID: 35148879583     PISSN: 00953628     EISSN: None     Source Type: Journal    
DOI: 10.1007/s00248-007-9236-z     Document Type: Article

References (49)

1. Abed, RMM, Safi, NMD, Köster, J, De Beer, D, El-Nahhal, Y, Rullkötter, J, Garcia-Pichel, F (2002) Microbial diversity of a heavily polluted microbial mat and its community changes following degradation of petroleum compounds. Appl Environ Microbiol 68: 1674-1683
2. Balba, MT, Nedwell, DB (1982) Microbial metabolism of acetate, propionate and butyrate in anoxic sediments from the Colne Point saltmarsh, Essex, UK. J Gen Microbiol 128: 1415-1422
3. Bordenave, S, Fourçans, A, Blanchard S, Goñi, MS, Caumette, P, Duran, R (2004) Structure and functional analyses of bacterial communities changes in microbial mats following petroleum exposure. Ophelia 58: 195-204
4. Brakenhoff, RH, Schoenmakers, JGG, Lubsen, NH (1991) Chimeric cDNA clones: a novel PCR artifact. Nucleic Acids Res 19: 1949
5. Brigmon, RL, Martin, HW, Morris, TL, Britton, G, Zam, SG (1994) Biogeochemical ecology of Thiothrix spp. in underwater limestone caves. Geomicrobiol J 12: 141-159
6. Brinkhoff, T, Muyzer, G, Wirsen, CO, Kuever, J (1999) Thiomicrospira kuenenii sp. nov. and Thiomicrospira frisia sp. nov., two mesophilic obligately chemolithoautotrophic sulfur-oxidizing bacteria isolated from an intertidal mud flat. Int J Syst Bacteriol 49: 385-392
7. Brinkhoff, T, Muyzer, G, Wirsen, CO, Kuever, J (1999) Thiomicrospira chilensis sp. nov., a mesophilic obligately chemolithoautotrophic sulfur-oxidizing bacterium isolated from a Thioploca mat. Int J Syst Bacteriol 49: 875-879
8. Cavanaugh, CM (1983) Symbiotic chemoautotrophic bacteria in marine invertebrates from sulphide-rich habitats. Nature 302: 58-61
9. Crump, BC, Baross, JA (1996) Particle-attached bacteria and heterotrophic plankton in the Columbia River estuary. Mar Ecol Prog Ser 138: 265-273
10. Crump, BC, Simenstad, CA, Baross, JA (1998) Particle-attached bacteria dominate the Columbia River estuary. Aquat Microb Ecol 14: 7-18
11. Cypionka, H, Widdel, F, Pfennig, N (1985) Survival of sulfate-reducing bacteria after oxygen stress growth in sulfate-free oxygen-sulfide gradients. FEMS Microbiol Ecol 31: 39-45
12. Distel, DL, Lane, DJ, Olsen, GJ, Giovanni, SJ, Pace, B, Pace, NR, Stahl, DA, Felbeck, H (1988) Sulfur-oxidizing bacterial endosymbionts: analysis of phylogeny and specificity by 16S rRNA sequences. J Bacteriol 170: 2506-2510
13. Eaton, AD, Clesceri, LS, Greenberg, AE (1995) Standard Methods for the Examination of Water and Wastewater, 19th edn. American Public Health Association; American Water Works Association; Water Environment Federation, Washington, D.C.
14. Felbeck, H, Childress, JJ, Somero, GN (1981) Calvin-Benson cycle and sulphide oxidation enzymes in animals from sulphide-rich habitats. Nature 293: 291-293
15. Fenchel, T (1969) The ecology of marine microbenthos IV. Structure and function of the benthic ecosystem, its chemical and physical factors and the microfauna communities with special reference to the ciliated Protozoa. Ophelia 6: 1-182
16. Fenchel, T, Perry, T, Thane, A (1977) Anaerobiosis and symbiosis with bacteria in free-living ciliates. J Protozool 24: 154-163
17. Fisher, MR, Hand, SC (1984) Chemoautotrophic symbionts in the bivalve Lucina floridana from seagrass beds. Biol Bull 167: 445-459
18. Friedrich, CG, Rother, D, Bardischewsky, F, Quentmeier, A, Fischer, J (2001) Oxidation of reduced inorganic sulfur compounds by bacteria: emergence of a common mechanism? Appl Environ Microbiol 67: 2873-2882
19. Ito, T, Sugita, K, Okabe, S (2004) Isolation, characterization, and in situ detection of a novel chemolithoautotrophic sulfur-oxidizing bacterium in wastewater biofilms growing under microaerophilic conditions. Appl Environ Microbiol 70: 3122-3129
20. Johnson, MA, Diouris, M, Le Pennec, M (1994) Endosymbiotic bacterial contribution in the carbon nutrition of Loripes lucinalis (Mollusca: Bivalvia). Symbiosis 17: 1-13
21. Jørgensen, BB, Bak, F (1991) Pathways and microbiology of thiosulfate transformations and sulfate reduction in a marine sediment (Kattegat, Denmark). Appl Environ Microbiol 57: 847-856
22. Lane, DJ (1991) 16S/23S rRNA sequencing. In: Stackebrandt, E, Goodfellow, M (Eds.) Nucleic Acid Techniques in Bacterial Systematics, John Wiley & Sons, Chichester, United Kingdom, pp 115-175
23. Lens, PN, De Poorter, M-P, Cronenberg, CC, Verstraete, WH (1995) Sulfate reducing and methane producing bacteria in aerobic wastewater treatment systems. Water Res 29: 871-880
24. Liesack, W, Weyland, H, Stackebrandt, E (1991) Potential risks of gene amplification by PCR as determined by 16S rDNA analysis of a mixed-culture of strict barophilic bacteria. Microb Ecol 21: 191-198
25. McCune, B, Mefford, MJ (1999) PC-ORD: Multivariate Analysis of Ecological Data. MjM Software Design, Gleneden Beach, Oregon, USA
26. Minz, D, Fishbain, S, Green, SJ, Muyzer, G, Cohen, Y, Rittmann, BE, Stahl, DA (1999) Unexpected population distribution in a microbial mat community: sulfate-reducing bacteria localized to the highly oxic chemocline in contrast to a eukaryotic preference for anoxia. Appl Environ Microbiol 65: 4659-4665
27. Minz, D, Flax, JL, Green, SJ, Muyzer, G, Cohen, Y, Wagner, M, Rittmann, BE, Stahl, DA (1999) Diversity of sulfate-reducing bacteria in oxic and anoxic regions of a microbial mat characterized by comparative analysis of dissimilatory sulfite reductase genes. Appl Environ Microbiol 65: 4666-4671
28. Moss, JA, Nocker, A, Lepo, JE, Snyder, RA (2006) Stability and change in estuarine biofilm bacterial community diversity. Appl Environ Microbiol 72: 5679-5688
29. Navarrete, A, Urmenta, J, Cantu, JM, Vegas, E, White, DC, Guerrero, R (2004) Signature lipid biomarkers of microbial mats of the Ebro Delta (Spain), Camargue and Étang (France): an assessment of biomass and activity. Ophelia 58: 175-188
30. Nelson, DC, Fisher, CR (1995) Chemoautotrophic and methanotrophic endosymbiotic bacteria at deep-sea vents and seeps. In: Karl, DM (Ed.) The Microbiology of Deep-Sea Hydrothermal Vents, CRC Press, Boca Raton, FL, pp 125-167
31. Nocker, A, Lepo, JE, Snyder, RA (2004) Influence of an oyster reef on development of the microbial heterotrophic community of an estuarine biofilm. Appl Environ Microbiol 70: 6834-6845
32. Okabe, S, Itoh, T, Satoh, H (2003) Sulfate-reducing bacterial community structure and their contribution to carbon mineralization in a wastewater biofilm growing under microaerophilic conditions. Appl Microbiol Biotechnol 63: 322-334
33. Okabe, S, Itoh, T, Satoh, H, Watanabe, Y (1999) Analyses of spatial distributions of sulfate-reducing bacteria and their activity in aerobic wastewater biofilms. Appl Environ Microbiol 65: 5107-5116
34. Purdy, KJ, Munson, MA, Embley, TM, Nedwell, DB (2003) Use of 16S rRNA-targeted oligonucleotide probes to investigate function and phylogeny of sulfate-reducing bacteria and methanogenic archaea in a UK estuary. FEMS Microbiol Ecol 44: 361-371
35. Purdy, KJ, Embley, TM, Nedwell, DB (2002) The distribution and activity of sulphate reducing bacteria in estuarine and coastal marine sediments. Antonie Van Leeuwenhoek 8: 181-187
36. Purdy, KJ, Nedwell, DB, Embley, TM, Takii, S (2001) Using 16S rRNA-targeted oligonucleotide probes to investigate the distribution of sulphate-reducing bacteria in a Japanese estuary. FEMS Microbiol Ecol 36: 165-168
37. Reid, R (1980) Aspects of the biology of a gutless species of Solemya (Bivalvia: Protobranchia). Can J Zool 58: 386-393
38. Rinke, C, Schmitz-Esser, S, Stoecker, K, Nussbaumer, AD, Molnár, DA, Vanura, Wagner, KM, Horn, M, Ott, JA, Brigh, M (2006) "Candidatus Thiobios zoothamnicoli," an ectosymbiotic bacterium covering the giant marine ciliate Zoothamnium niveum. Appl Environ Microbiol 72: 2014-2021
39. Röling, WFM, Milner, MG, Martin Jones, D, Fratepietro, F, Swannell, RPJ, Daniel, F, Head, IM (2004) Bacterial community dynamics and hydrocarbon degradation during a field-scale evaluation of bioremediation on a mudflat beach contaminated with buried oil. Appl Environ Microbiol 70: 2603-2613
40. Santegoeds CM, Ferdelman, TG, Muyzer, G, de Beer, D (1998) Structural and functional dynamics of sulfate-reducing populations in bacterial biofilms. Appl Environ Microbiol 64: 3731-3739
41. Sarbu, SM, Kinkle, BK, Vlasceanu, L, Kane, TC, Popa, R (1994) Microbiological characterization of a sulfide-rich groundwater ecosystem. Geomicrobiol J 12: 175-182
42. Schramm, A, Larsen, LH, Revsbech, NP, Ramsing, NB, Amann, R, Schleifer, K-H (1996) Structure and function of a nitrifying biofilm as determined by in situ hybridization and the use of microelectrodes. Appl Environ Microbiol 62: 4641-4647
43. Sievert, SM, Heidorn, T, Kuever, J (2000) Halothiobacillus kellyi sp. nov., a mesophilic, obligately chemolithoautotrophic, sulfur-oxidizing bacterium isolated from a shallow-water hydrothermal vent in the Aegean sea, and emended description of the genus Halothiobacillus. Int J Syst Evol Microbiol 50: 1229-1237
44. Snyder, RA, Lewis, MA, Nocker, A, Lepo, JE (2004) Microbial biofilms as integrative sensors of environmental quality. In: Bortone, SA (Ed.) Estuarine Indicators, CRC Press, Boca Raton, FL, pp 111-126
45. Urakawa, H, Yoshida, T, Nishimura, M, Ohwada, K (2001) Characterization of microbial community in surface marine sediments using terminal restriction fragment length polymorphism (T-RFLP) analysis and quinone profiling. Mar Ecol Prog Ser 220: 47-57
46. U.S. Environmental Protection Agency (1997) Revision to Rapid Bioassessment Protocols for Use in Streams and Rivers: Periphyton, Benthic Macroinvertebrates, and Fish. EPA 841-D-97-002. United States Environmental Protection Agency, Washington, D.C.
47. Widdel, F, Bak, F (1992) Gram-negative mesophilic sulfate-reducing bacteria. In: Balows, A, Trüper, HG, Dworkin, M, Harder, W, Schleifer, K-H (Eds.) The Procaryotes: A Handbook on the Biology of Bacteria: Ecophysiology, Identification, Application, Springer-Verlag, NY
48. Winfrey, MR, Ward, DM (1983) Substrates for sulfate reduction and methane production in intertidal sediments. Appl Environ Microbiol 45: 193-199
49. Wu, J (1999) A generic index of diatom assemblages as bioindicator of pollution in the Keelung River of Taiwan. Hydrobiologia 397: 79-87